{ "bcoid": "GLY_000098", "title": "Mouse UniProtKB Xref CDD", "description": "The Mouse UniProtKB Xref CDD contains mouse [taxid:10090] UniProtKB canonical accessions cross-referenced ...", "filename": "mouse_protein_xref_cdd.csv", "filetype": "csv", "categories": { "species": "Mus musculus", "molecule": "Protein", "tags": "Cdd cross-references", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q9CWR0-1...", "protein_xref..." ], [ "O35153-1...", "protein_xref..." ] ], "headers": [ "uniprotkb_ca...", "xref_key..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "xref_key" }, { "type": "string", "label": "xref_id" }, { "type": "string", "label": "xref_label" } ], [ "Q9CWR0-1", "protein_xref_cdd", "cd00160", "RhoGEF" ], [ "O35153-1", "protein_xref_cdd", "cd15853", "SNARE_Bet1" ], [ "Q9QYH9-1", "protein_xref_cdd", "cd00184", "TNF" ], [ "Q5EBH1-1", "protein_xref_cdd", "cd00029", "C1" ], [ "Q5SRT8-1", "protein_xref_cdd", "cd00043", "CYCLIN" ], [ "P70412-1", "protein_xref_cdd", "cd00041", "CUB" ], [ "B2RRA8-1", "protein_xref_cdd", "cd07765", "KRAB_A-box" ], [ "P70419-1", "protein_xref_cdd", "cd00161", "RICIN" ], [ "O08911-1", "protein_xref_cdd", "cd07880", "STKc_p38gamma" ], [ "O08912-1", "protein_xref_cdd", "cd00161", "RICIN" ], [ "O08918-1", "protein_xref_cdd", "cd00043", "CYCLIN" ], [ "Q91VH6-1", "protein_xref_cdd", "cd07361", "MEMO_like" ], [ "P19070-1", "protein_xref_cdd", "cd00033", "CCP" ], [ "Q66GT5-1", "protein_xref_cdd", "cd14524", "PTPMT1" ], [ "P59708-1", "protein_xref_cdd", "cd12241", "RRM_SF3B14" ], [ "P59808-1", "protein_xref_cdd", "cd11967", "SH3_SASH1" ], [ "P59808-1", "protein_xref_cdd", "cd09492", "SAM_SASH1_repeat2" ], [ "P59808-1", "protein_xref_cdd", "cd09559", "SAM_SASH1_repeat1" ], [ "F8VQK3-1", "protein_xref_cdd", "cd07302", "CHD" ], [ "Q91UZ1-1", "protein_xref_cdd", "cd13361", "PH_PLC_beta" ], [ "Q8K2M0-1", "protein_xref_cdd", "cd00866", "PEBP_euk" ], [ "P21661-1", "protein_xref_cdd", "cd04059", "Peptidases_S8_Protein_convertases_Kexins_Furin-like" ], [ "O55087-1", "protein_xref_cdd", "cd00265", "MADS_MEF2_like" ], [ "P58462-1", "protein_xref_cdd", "cd00059", "FH" ], [ "P58462-1", "protein_xref_cdd", "cd00059", "FH" ], [ "Q8CB67-1", "protein_xref_cdd", "cd00112", "LDLa" ], [ "P59672-1", "protein_xref_cdd", "cd09499", "SAM_AIDA1AB-like_repeat1" ], [ "P59672-1", "protein_xref_cdd", "cd09500", "SAM_AIDA1AB-like_repeat2" ], [ "P98154-1", "protein_xref_cdd", "cd03599", "CLECT_DGCR2_like" ], [ "P98154-1", "protein_xref_cdd", "cd00112", "LDLa" ], [ "Q8K0D2-1", "protein_xref_cdd", "cd00190", "Tryp_SPc" ], [ "Q8K0D2-1", "protein_xref_cdd", "cd00108", "KR" ], [ "Q9ES28-1", "protein_xref_cdd", "cd00160", "RhoGEF" ], [ "Q9ES28-1", "protein_xref_cdd", "cd12061", "SH3_betaPIX" ], [ "E9Q6R7-1", "protein_xref_cdd", "cd00014", "CH" ], [ "Q99J85-1", "protein_xref_cdd", "cd00152", "PTX" ], [ "Q68FM7-1", "protein_xref_cdd", "cd08753", "RGS_PDZRhoGEF" ], [ "P06909-1", "protein_xref_cdd", "cd00033", "CCP" ], [ "Q9WUZ7-1", "protein_xref_cdd", "cd03030", "GRX_SH3BGR" ], [ "Q91YI0-1", "protein_xref_cdd", "cd01359", "Argininosuccinate_lyase" ], [ "Q61282-1", "protein_xref_cdd", "cd00033", "CCP" ], [ "Q61282-1", "protein_xref_cdd", "cd03588", "CLECT_CSPGs" ], [ "A0A0U1RQ84-1", "protein_xref_cdd", "cd07765", "KRAB_A-box" ], [ "Q9ESN2-1", "protein_xref_cdd", "cd13745", "SPRY_PRY_TRIM39" ], [ "E9Q4S1-1", "protein_xref_cdd", "cd00077", "HDc" ], [ "Q52KB6-1", "protein_xref_cdd", "cd08683", "C2_C2cd3" ], [ "Q9QZ88-1", "protein_xref_cdd", "cd07394", "MPP_Vps29" ], [ "Q8K2Z8-1", "protein_xref_cdd", "cd00195", "UBCc" ], [ "J3QP87-1", "protein_xref_cdd", "cd05793", "S1_IF1A" ], [ "O88307-1", "protein_xref_cdd", "cd00112", "LDLa" ], [ "O88307-1", "protein_xref_cdd", "cd00063", "FN3" ], [ "Q8R081-1", "protein_xref_cdd", "cd12699", "RRM3_hnRNPL" ], [ "Q8R081-1", "protein_xref_cdd", "cd12704", "RRM4_hnRNPL" ], [ "Q8R081-1", "protein_xref_cdd", "cd12785", "RRM2_hnRNPL" ], [ "P48193-1", "protein_xref_cdd", "cd14473", "FERM_B-lobe" ], [ "P48193-1", "protein_xref_cdd", "cd14473", "FERM_B-lobe" ], [ "Q6QLQ4-1", "protein_xref_cdd", "cd03593", "CLECT_NK_receptors_like" ], [ "Q8BG81-1", "protein_xref_cdd", "cd12681", "RRM_SKAR" ], [ "Q9QXL8-1", "protein_xref_cdd", "cd04412", "NDPk7B" ], [ "Q9QXL8-1", "protein_xref_cdd", "cd04415", "NDPk7A" ], [ "Q8VEK6-1", "protein_xref_cdd", "cd15585", "PHD_ING3" ], [ "Q8VEK3-1", "protein_xref_cdd", "cd12884", "SPRY_hnRNP" ], [ "P83093-1", "protein_xref_cdd", "cd09574", "SAM_STIM2" ], [ "P83093-1", "protein_xref_cdd", "cd11722", "SOAR" ], [ "A0A2R8VJU7-1", "protein_xref_cdd", "cd01850", "CDC_Septin" ], [ "Q5SW19-1", "protein_xref_cdd", "cd15466", "CLU-central" ], [ "Q8C0V9-1", "protein_xref_cdd", "cd14473", "FERM_B-lobe" ], [ "Q8C0V9-1", "protein_xref_cdd", "cd13185", "FERM_C_FRMD1_FRMD6" ], [ "Q9R007-3", "protein_xref_cdd", "cd03593", "CLECT_NK_receptors_like" ], [ "P39053-1", "protein_xref_cdd", "cd08771", "DLP_1" ], [ "Q9Z255-1", "protein_xref_cdd", "cd00195", "UBCc" ], [ "Q6QIY3-1", "protein_xref_cdd", "cd13433", "Na_channel_gate" ], [ "O70133-1", "protein_xref_cdd", "cd17972", "DEXHc_DHX9" ], [ "O70133-1", "protein_xref_cdd", "cd19854", "DSRM_DHX9_rpt1" ], [ "O70133-1", "protein_xref_cdd", "cd19855", "DSRM_DHX9_rpt2" ], [ "O70137-1", "protein_xref_cdd", "cd00086", "homeodomain" ], [ "O70138-1", "protein_xref_cdd", "cd00094", "HX" ], [ "O70138-1", "protein_xref_cdd", "cd04278", "ZnMc_MMP" ], [ "A2ASS6-1", "protein_xref_cdd", "cd00063", "FN3" ], [ "Q9QUL7-1", "protein_xref_cdd", "cd00190", "Tryp_SPc" ], [ "Q5RJY2-1", "protein_xref_cdd", "cd15496", "PHD_PHF7_G2E3_like" ], [ "Q5RJY2-1", "protein_xref_cdd", "cd15669", "ePHD_PHF7_G2E3_like" ], [ "Q5S248-1", "protein_xref_cdd", "cd00190", "Tryp_SPc" ], [ "Q8VD98-1", "protein_xref_cdd", "cd03593", "CLECT_NK_receptors_like" ] ] }, "readme": "Name\n - Mouse UniProtKB Xref CDD\n\nVersion\n - 1.11.2\n\nCreated on\n - 2019-03-15T12:09:02.680538\n\nModified on\n - 2020-04-10T12:37:40.337326\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Rahi Navelkar [rsn13@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Xavier Holmes [xavierh@email.gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Amanda Bell [amandab2140@gwu.edu], Jonathon Keeney [keeneyjg@gwu.edu], Millicent Quartey [mquartey@email.gwu.edu]\n\nAuthors\n - Maria Martin [martin@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n - \n\nUsability Domain\n - The Mouse UniProtKB Xref CDD contains mouse [taxid:10090] UniProtKB canonical accessions cross-referenced to CDD database accessions/identifiers. The dataset is derived from 2019-09 UniProtKB release. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen\n - The Conserved Domain Database is a database of well-annotated multiple sequence alignment models and derived database search models, for ancient domains and full-length proteins.\n\nDescription Domain\n Keywords\n - protein domains\n - CDD\n - cross-reference\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB canonical accessions that are cross-referenced to CDD database accessions/identifiers from the triplestore containing triples from nt file and extracts the data as a csv dataset\n\nExecution Domain\n Scripts - https://github.com/GW-HIVE/glygen-backend-integration/blob/master/pipeline/integrator/make-protein-dataset.py\n\n\n Software Prerequisites\n Name: Python\n Version: 2.7.5\n URI: https://www.python.org/download/releases/2.7.5/\n\nI/O Domain\n Input Subdomain\n Name: mouse_protein_masterlist.csv\n URI: https://data.glygen.org//ln2releases/data/v-1.11.2/reviewed/mouse_protein_masterlist.csv\n Name: uniprot-proteome-mus-musculus.nt\n URI: https://data.glygen.org//ln2downloads/ebi/2021_03/uniprot-proteome-mus-musculus.nt\n Output Subdomain\n Name: mouse_protein_xref_cdd.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_xref_cdd.csv\n Name: mouse_protein_xref_cdd.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_xref_cdd.stat.csv", "downloadurl": "/ln2data/releases/data/v-1.12.1/reviewed/mouse_protein_xref_cdd.csv" }